Dfam 2.0 (September 2015, 4150 entries)

Transposable elements (or interspersed repeats) account for a substantial
portion of eukaryotic genomes. Accurate annotation of TEs enables research
into their biology and can shed light on the evolutionary processes that shape
genomes. Dfam represents a collection of alignments and HMMs
of such transposable elements and other repetitive DNA elements. The Dfam
website gives information about each model, and provides genome annotations
for a collection of core genomes. The models may also be downloaded from the ftp
site, for example to mask repeats in new genomes.

Quick Links

You can find data in Dfam in various ways...

Sequence Search

Analyze your DNA sequence for Dfam matches

Paste your DNA sequence here to find matching Dfam entries.

This search will search against all Dfam models ( regardless of clade ) and using the trusted cut-off thresholds (stringent). You can set your own search parameters here.

View a Dfam Entry

View Dfam entry annotation and alignments

Enter an entry identifier (e.g. AluJb) or accession (e.g. DF0000001) to see all data for that entry.

Dfam_consensus

Dfam_consensus is a related database of Repetitive DNA element sequence alignments and consensus sequence models. This open database provides family consensus models in a format that is compatible with an wide-variety of bioinformatics tools while facilitating the transition to Dfam style profile HMMs.

We are excited to announce the opening of a postdoctoral fellowship within the Dfam project and located at the Institute for Systems Biology (ISB) in Seattle. At ISB, the Smit lab is focused on the study of Transposable Element (TE) biology, and evolution using the latest developments in sequence modeling, phylogenetic reconstruction, and homology detection. We have developed […]